testssuite02
Class Alignedtmrna

java.lang.Object
  modele.ObjectListe
      modele.SequenceListe
          testssuite02.AlignedSequences
              testssuite02.Alignedtmrna

public class Alignedtmrna
extends AlignedSequences

Here is a set of 87 sequences of tmRNA, original selection made by Stefan Engelen in 2006 and before for tests.
Target sequence to use is ecoli, and most interesting sequence selection is {vichon,acact,hainf,haduc,pamul,yepes}. Outgroup of alignment is clace.

Since:

August 2008

Author:

Gabriel Chandesris (2008)

See Also:

ecoli, vicho, acact, hainf, haduc, pamul, yepes, clace

Field Summary

static Sequence	acact
static Sequence	acfer
static Sequence	aesal
static Sequence	aleut
static Sequence	alhal
static Sequence	anspe
static Sequence	aqaeo
static Sequence	baant
static Sequence	bameg
static Sequence	basub
static Sequence	bobro
static Sequence	bobur
static Sequence	boper
static Sequence	brjap
static Sequence	cacre
static Sequence	cajej
static Sequence	chmur
static Sequence	chpne
static Sequence	chpsi
static Sequence	chtep
static Sequence	chtra
static Sequence	clace
static Sequence	cldif
static Sequence	codip
static Sequence	cypar
static Sequence	dedes
static Sequence	derad
static Sequence	devul
static Sequence	dinod
static Sequence	ecoli
static Sequence	enfaa
static Sequence	enfab
static Sequence	frtul
static Sequence	funuc
static Sequence	gesul
static Sequence	guthe
static Sequence	haduc
static Sequence	hainf
static Sequence	hepyl
static Sequence	klpne
static Sequence	lepne
static Sequence	mahyd
static Sequence	meext
static Sequence	myavi
static Sequence	mybov
static Sequence	mycap
static Sequence	mygen
static Sequence	mylep
static Sequence	mypen
static Sequence	mytub
static Sequence	negon
static Sequence	nemea
static Sequence	nemeb
static Sequence	nieur
static Sequence	nopum
static Sequence	odsin
static Sequence	pamul
static Sequence	pogin
static Sequence	popur
static Sequence	psaer
static Sequence	pshal
static Sequence	psput
static Sequence	reame
static Sequence	rhpal
static Sequence	ripro
static Sequence	sapar
static Sequence	satyp
static Sequence	shput
static Sequence	simel
static Sequence	staur
static Sequence	stcoe
static Sequence	stepi
static Sequence	stequ
static Sequence	stgor
static Sequence	stmut
static Sequence	stpne
static Sequence	stpyo
static Sequence	syspa
static Sequence	syspb
static Sequence	thmar
static Sequence	ththe
static Sequence	thwei
static Sequence	trpal
static Sequence	urure
static Sequence	vicho
static Sequence	xyfas
static Sequence	yepes

Fields inherited from class testssuite02.AlignedSequences

localinstance

Constructor Summary

private

Alignedtmrna()

Method Summary

static AlignedSequences	getAlignedSequences()
static AlignedSequences	getBestSequences()

Methods inherited from class testssuite02.AlignedSequences

conversionFrom, conversionFrom, convertFrom, convertFrom, getAlignment

Methods inherited from class modele.SequenceListe

addSequence, clone, combinationWithoutRepetition, combinatoire, computeAverageVariabilite, equals, factorielle, getListe, getMoyenneVariabilite, getSequence, getSequence, has, isIn, length, removeSequence, removeSequence, setListe, setSequence, sortByDecreasing, sortByIncreasing

Methods inherited from class modele.ObjectListe

addObjet, equals, getListeObjects, getObject, has, removeObject, removeObject, setListe, setObject

Methods inherited from class java.lang.Object

equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

ecoli

public static final Sequence ecoli

aqaeo

public static final Sequence aqaeo

thmar

public static final Sequence thmar

ththe

public static final Sequence ththe

derad

public static final Sequence derad

pogin

public static final Sequence pogin

chtep

public static final Sequence chtep

chtra

public static final Sequence chtra

chmur

public static final Sequence chmur

chpne

public static final Sequence chpne

chpsi

public static final Sequence chpsi

anspe

public static final Sequence anspe

nopum

public static final Sequence nopum

syspb

public static final Sequence syspb

syspa

public static final Sequence syspa

odsin

public static final Sequence odsin

popur

public static final Sequence popur

guthe

public static final Sequence guthe

thwei

public static final Sequence thwei

cypar

public static final Sequence cypar

reame

public static final Sequence reame

bobur

public static final Sequence bobur

trpal

public static final Sequence trpal

cacre

public static final Sequence cacre

brjap

public static final Sequence brjap

rhpal

public static final Sequence rhpal

simel

public static final Sequence simel

ripro

public static final Sequence ripro

meext

public static final Sequence meext

negon

public static final Sequence negon

nemea

public static final Sequence nemea

nemeb

public static final Sequence nemeb

nieur

public static final Sequence nieur

aleut

public static final Sequence aleut

boper

public static final Sequence boper

bobro

public static final Sequence bobro

dinod

public static final Sequence dinod

frtul

public static final Sequence frtul

xyfas

public static final Sequence xyfas

lepne

public static final Sequence lepne

acfer

public static final Sequence acfer

psaer

public static final Sequence psaer

psput

public static final Sequence psput

shput

public static final Sequence shput

alhal

public static final Sequence alhal

mahyd

public static final Sequence mahyd

pshal

public static final Sequence pshal

vicho

public static final Sequence vicho

aesal

public static final Sequence aesal

klpne

public static final Sequence klpne

sapar

public static final Sequence sapar

satyp

public static final Sequence satyp

yepes

public static final Sequence yepes

acact

public static final Sequence acact

hainf

public static final Sequence hainf

haduc

public static final Sequence haduc

pamul

public static final Sequence pamul

dedes

public static final Sequence dedes

devul

public static final Sequence devul

gesul

public static final Sequence gesul

hepyl

public static final Sequence hepyl

cajej

public static final Sequence cajej

funuc

public static final Sequence funuc

myavi

public static final Sequence myavi

mybov

public static final Sequence mybov

mylep

public static final Sequence mylep

mytub

public static final Sequence mytub

codip

public static final Sequence codip

stcoe

public static final Sequence stcoe

bameg

public static final Sequence bameg

basub

public static final Sequence basub

baant

public static final Sequence baant

staur

public static final Sequence staur

stepi

public static final Sequence stepi

enfaa

public static final Sequence enfaa

enfab

public static final Sequence enfab

stpyo

public static final Sequence stpyo

stgor

public static final Sequence stgor

stequ

public static final Sequence stequ

stmut

public static final Sequence stmut

stpne

public static final Sequence stpne

urure

public static final Sequence urure

mycap

public static final Sequence mycap

mygen

public static final Sequence mygen

mypen

public static final Sequence mypen

cldif

public static final Sequence cldif

clace

public static final Sequence clace

Constructor Detail

Alignedtmrna

private Alignedtmrna()

Method Detail

getAlignedSequences

public static AlignedSequences getAlignedSequences()

getBestSequences

public static AlignedSequences getBestSequences()